Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A0 F0 I1 R1
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
406,488 |
G→T |
L70I (CTC→ATC) |
h16_A0388 ← |
ABC‑type transporter, ATPase component: HAAT family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 406,488 | 0 | G | T | 100.0%
| 59.9
/ NA
| 17 | L70I (CTC→ATC) | h16_A0388 | ABC‑type transporter, ATPase component: HAAT family |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (8/9); total (8/9) |
ATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGAGCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCATAGCGTTTCTTC > AM260479/406400‑406606
|
aTGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAggtgg > 1:751246/1‑106 (MQ=255)
aTGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAggtgg < 2:751246/106‑1 (MQ=255)
gcgcgcgcgcTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGc > 1:697238/1‑134 (MQ=255)
gcTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGaccacc > 1:268945/1‑134 (MQ=255)
cTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCt > 2:132131/1‑134 (MQ=255)
tCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCcgcg < 1:641276/105‑1 (MQ=255)
tCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCcgcg > 2:641276/1‑105 (MQ=255)
gCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTc < 1:353391/134‑1 (MQ=255)
aTGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTcgagc < 2:268945/132‑1 (MQ=255)
aTGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTcgagc < 2:679897/132‑1 (MQ=255)
ccGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCtt > 1:448596/1‑134 (MQ=255)
gTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGa < 1:132131/134‑1 (MQ=255)
ccAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCcgcg > 1:1007116/1‑50 (MQ=255)
ccAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCcgcg < 2:1007116/50‑1 (MQ=255)
cAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCAt > 2:792473/1‑128 (MQ=255)
cAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCAt < 1:792473/128‑1 (MQ=255)
ccaccaGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCATAGCGTttcttc < 2:697238/134‑1 (MQ=255)
|
ATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGAGCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCATAGCGTTTCTTC > AM260479/406400‑406606
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTTCTCTTCGACGTTGAGCTTGCGGAATACCGAGGCTTCCTGCGGCAGGTACGACAGCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGAGCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCATAGCGTTTCTTCAGGTGGCGCACG > AM260479/406339‑406618
|
GTTCTCTTCGACGTTGAGCTTGCGGAATACCGAGGCTTCCTGCGGCAGGTACGACAGCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGAT < GWNJ‑0478:712:GW2002102894th:2:2111:20282:9408/150‑1 (MQ=60)
tctttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagTGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGT < GWNJ‑0478:712:GW2002102894th:2:1215:2770:26982/70‑1 (MQ=60)
GCGGAATACCGAGGCTTCCTGCGGCAGGTACGACAGCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGctgtctctt > GWNJ‑0478:712:GW2002102894th:2:2113:12759:3643/1‑140 (MQ=60)
gtgtataagagacagCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGC < GWNJ‑0478:712:GW2002102894th:2:2104:7925:15224/135‑1 (MQ=60)
AGGTACGACAGCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:2110:6879:28908/1‑136 (MQ=60)
GTACGACAGCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCC > GWNJ‑0478:712:GW2002102894th:2:2108:8497:42919/1‑150 (MQ=60)
GCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGctgtctcttatacacatctccgagcccacgagacactcgctaatc > GWNJ‑0478:712:GW2002102894th:2:2103:7014:17438/1‑105 (MQ=60)
GCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCT > GWNJ‑0478:712:GW2002102894th:2:1116:12887:24110/1‑150 (MQ=60)
TGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaa > GWNJ‑0478:712:GW2002102894th:2:1202:2646:89264/1‑81 (MQ=60)
GGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACG < GWNJ‑0478:712:GW2002102894th:2:1204:9748:40043/150‑1 (MQ=60)
CCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTG > GWNJ‑0478:712:GW2002102894th:2:1211:5345:85533/1‑150 (MQ=60)
CTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaaac > GWNJ‑0478:712:GW2002102894th:2:2211:16750:4055/1‑64 (MQ=60)
CGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGC < GWNJ‑0478:712:GW2002102894th:2:1109:14681:11819/150‑1 (MQ=60)
GAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaacatagaaaaacagac > GWNJ‑0478:712:GW2002102894th:2:1215:17909:97180/1‑56 (MQ=60)
CGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaa > GWNJ‑0478:712:GW2002102894th:2:2208:2652:17666/1‑80 (MQ=60)
TCGTCCAGCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCATAGCGTTTCTTCAGGT < GWNJ‑0478:712:GW2002102894th:2:2112:4345:38104/148‑1 (MQ=60)
GCGCCACCAGGCCCACGATCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCATAGCGTTTCTTCtgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:1212:14212:92045/1‑137 (MQ=60)
|
GTTCTCTTCGACGTTGAGCTTGCGGAATACCGAGGCTTCCTGCGGCAGGTACGACAGCCCCATGCGCGCGCGCTCGTGGATCGGCAGGCCGCTGATGTGGTCGCCGTCGAGCACGATATCGCCTTCGTCCAGCGCCACCAGGCCCACGAGCATGTAGAAGGAGGTGGTCTTGCCCGCGCCGTTGGGCCCAAGCAGGCCGACCACCTCGCCGCTCTTCACGTCGAGCGAGACGTCCTTGACCACCGTGCGCGAGCCATAGCGTTTCTTCAGGTGGCGCACG > AM260479/406339‑406618
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
